:orphan:  .. only available via index, not via toctree

.. title:: Package Recipe 'bioconductor-scater'
.. highlight: bash

bioconductor-scater
===================

.. conda:recipe:: bioconductor-scater
   :replaces_section_title:
   :noindex:

   Single\-Cell Analysis Toolkit for Gene Expression Data in R

   :homepage: https://bioconductor.org/packages/3.14/bioc/html/scater.html
   :license: GPL-3
   :recipe: /`bioconductor-scater <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-scater>`_/`meta.yaml <https://github.com/bioconda/bioconda-recipes/tree/master/recipes/bioconductor-scater/meta.yaml>`_
   :links: biotools: :biotools:`scater`

   A collection of tools for doing various analyses of single\-cell RNA\-seq gene expression data\, with a focus on quality control and visualization.


.. conda:package:: bioconductor-scater

   |downloads_bioconductor-scater| |docker_bioconductor-scater|

   :versions:
      
      
      .. raw:: html

         <details><summary><span class="truncated-version-list"><code>1.22.0-0</code>,  <code>1.20.0-0</code>,  <code>1.18.6-0</code>,  <code>1.18.0-0</code>,  <code>1.16.0-0</code>,  <code>1.14.0-0</code>,  <code>1.12.2-0</code>,  <code>1.10.1-0</code>,  <code>1.10.0-0</code>,  </span></summary>
      

      ``1.22.0-0``,  ``1.20.0-0``,  ``1.18.6-0``,  ``1.18.0-0``,  ``1.16.0-0``,  ``1.14.0-0``,  ``1.12.2-0``,  ``1.10.1-0``,  ``1.10.0-0``,  ``1.8.4-0``,  ``1.6.0-0``,  ``1.4.0-0``

      
      .. raw:: html

         </details>
      

   
   :depends bioconductor-beachmat: ``>=2.10.0,<2.11.0``
   :depends bioconductor-biocgenerics: ``>=0.40.0,<0.41.0``
   :depends bioconductor-biocneighbors: ``>=1.12.0,<1.13.0``
   :depends bioconductor-biocparallel: ``>=1.28.0,<1.29.0``
   :depends bioconductor-biocsingular: ``>=1.10.0,<1.11.0``
   :depends bioconductor-delayedarray: ``>=0.20.0,<0.21.0``
   :depends bioconductor-delayedmatrixstats: ``>=1.16.0,<1.17.0``
   :depends bioconductor-s4vectors: ``>=0.32.0,<0.33.0``
   :depends bioconductor-scuttle: ``>=1.4.0,<1.5.0``
   :depends bioconductor-singlecellexperiment: ``>=1.16.0,<1.17.0``
   :depends bioconductor-summarizedexperiment: ``>=1.24.0,<1.25.0``
   :depends r-base: ``>=4.1,<4.2.0a0``
   :depends r-ggbeeswarm: 
   :depends r-ggplot2: 
   :depends r-ggrepel: 
   :depends r-gridextra: 
   :depends r-matrix: 
   :depends r-rcolorbrewer: 
   :depends r-rlang: 
   :depends r-rtsne: 
   :depends r-viridis: 
   :requirements:

   .. rubric:: Installation

   With an activated Bioconda channel (see :ref:`set-up-channels`), install with::

      conda install bioconductor-scater

   and update with::

      conda update bioconductor-scater

   or use the docker container::

      docker pull quay.io/biocontainers/bioconductor-scater:<tag>

   (see `bioconductor-scater/tags`_ for valid values for ``<tag>``)


.. |downloads_bioconductor-scater| image:: https://img.shields.io/conda/dn/bioconda/bioconductor-scater.svg?style=flat
   :target: https://anaconda.org/bioconda/bioconductor-scater
   :alt:   (downloads)
.. |docker_bioconductor-scater| image:: https://quay.io/repository/biocontainers/bioconductor-scater/status
   :target: https://quay.io/repository/biocontainers/bioconductor-scater
.. _`bioconductor-scater/tags`: https://quay.io/repository/biocontainers/bioconductor-scater?tab=tags


.. raw:: html

    <script>
        var package = "bioconductor-scater";
        var versions = ["1.22.0","1.20.0","1.18.6","1.18.0","1.16.0"];
    </script>






Download stats
-----------------

.. raw:: html
    :file: ../../templates/package_dashboard.html

Link to this page
-----------------

Render an |install-with-bioconda| badge with the following MarkDown::

   [![install with bioconda](https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat)](http://bioconda.github.io/recipes/bioconductor-scater/README.html)

.. |install-with-bioconda| image:: https://img.shields.io/badge/install%20with-bioconda-brightgreen.svg?style=flat
   :target: http://bioconda.github.io/recipes/bioconductor-scater/README.html